H12 windows of interest

For each sample set, we first provide a summary plot of ΔH12 (H12 in susceptible samples subtracted from that in resistant samples) across the genome, with ΔH12 shown in green and the results of the 200 randomisations shown behind in grey. Windows identified as peaks are highlighted by points, colour-coded by whether they are significantly higher than expected based on the simulations (green) or not (purple). For each significant window (green points), we then provide its own plot showing the significant (P < 0.01) SNPs found in the region of that window, and their -log10(Pvalue) of association with phenotype. Red points indicate non-synonymous SNPs, blue points indicate all other SNPs. Point shape indicates whether the mutant allele at that SNP is associated with increased (circle) or decreased (triangle) resistance. Dark points in the centre of the plot show SNPs within the significant window, light points on the sides show SNPs in the region 10,000 bp either side of the window.

Legend
Avrankou_coluzzii_Delta
Baguida_gambiae_Delta
Korle-Bu_coluzzii_Delta
Madina_gambiae_Delta
Obuasi_gambiae_Delta
Baguida_gambiae_PM
Korle-Bu_coluzzii_PM
Madina_gambiae_PM
Obuasi_gambiae_PM


Plot legend

legend


Avrankou_coluzzii_Delta

Avrankou_coluzzii_Delta_peak_filter

 

Avrankou_coluzzii_Delta_2L:3627850
Avrankou_coluzzii_Delta_2L:39336219
Avrankou_coluzzii_Delta_2L:40020139
Avrankou_coluzzii_Delta_2R:55812794
Avrankou_coluzzii_Delta_3R:46530542
Avrankou_coluzzii_Delta_3R:46606399
Avrankou_coluzzii_Delta_3R:46697535
Avrankou_coluzzii_Delta_3R:46784988
Avrankou_coluzzii_Delta_3R:46831369
Avrankou_coluzzii_Delta_3R:46856221
Avrankou_coluzzii_Delta_3R:48501462

Avrankou_coluzzii_Delta_2L_3627850

 

Avrankou_coluzzii_Delta_2L:3627850_overview

 

Avrankou_coluzzii_Delta_2L_39336219

 

Avrankou_coluzzii_Delta_2L:39336219_overview

 

Avrankou_coluzzii_Delta_2L_40020139

 

Avrankou_coluzzii_Delta_2L:40020139_overview

 

Avrankou_coluzzii_Delta_2R_55812794

 

Avrankou_coluzzii_Delta_2R:55812794_overview

 

Avrankou_coluzzii_Delta_3R_46530542

 

Avrankou_coluzzii_Delta_3R:46530542_overview

 

Avrankou_coluzzii_Delta_3R_46606399

 

Avrankou_coluzzii_Delta_3R:46606399_overview

 

Avrankou_coluzzii_Delta_3R_46697535

 

Avrankou_coluzzii_Delta_3R:46697535_overview

 

Avrankou_coluzzii_Delta_3R_46784988

 

Avrankou_coluzzii_Delta_3R:46784988_overview

 

Avrankou_coluzzii_Delta_3R_46831369

 

Avrankou_coluzzii_Delta_3R:46831369_overview

 

Avrankou_coluzzii_Delta_3R_46856221

 

Avrankou_coluzzii_Delta_3R:46856221_overview

 

Avrankou_coluzzii_Delta_3R_48501462

 

Avrankou_coluzzii_Delta_3R:48501462_overview

 


Baguida_gambiae_Delta

Baguida_gambiae_Delta_peak_filter

 

Baguida_gambiae_Delta_2L:20037401
Baguida_gambiae_Delta_2R:3042129
Baguida_gambiae_Delta_2R:3519707

Baguida_gambiae_Delta_2L_20037401

 

Baguida_gambiae_Delta_2L:20037401_overview

 

Baguida_gambiae_Delta_2R_3042129

 

Baguida_gambiae_Delta_2R:3042129_overview

 

Baguida_gambiae_Delta_2R_3519707

 

Baguida_gambiae_Delta_2R:3519707_overview

 


Korle-Bu_coluzzii_Delta

Korle-Bu_coluzzii_Delta_peak_filter

 

Korle-Bu_coluzzii_Delta_2R:28546290
Korle-Bu_coluzzii_Delta_2R:54064272
Korle-Bu_coluzzii_Delta_3R:4030785
Korle-Bu_coluzzii_Delta_X:15661082

Korle-Bu_coluzzii_Delta_2R_28546290

 

Korle-Bu_coluzzii_Delta_2R:28546290_overview

 

Korle-Bu_coluzzii_Delta_2R_54064272

 

Korle-Bu_coluzzii_Delta_2R:54064272_overview

 

Korle-Bu_coluzzii_Delta_3R_4030785

 

Korle-Bu_coluzzii_Delta_3R:4030785_overview

 

Korle-Bu_coluzzii_Delta_X_15661082

 

Korle-Bu_coluzzii_Delta_X:15661082_overview

 


Madina_gambiae_Delta

Madina_gambiae_Delta_peak_filter

 

Madina_gambiae_Delta_2L:14217696
Madina_gambiae_Delta_2L:14284997
Madina_gambiae_Delta_2L:27986348
Madina_gambiae_Delta_2L:28023911
Madina_gambiae_Delta_2L:28093738
Madina_gambiae_Delta_2L:28110739
Madina_gambiae_Delta_2L:28130562
Madina_gambiae_Delta_2L:28174232
Madina_gambiae_Delta_2L:31419497
Madina_gambiae_Delta_2L:3246748
Madina_gambiae_Delta_2L:3287434
Madina_gambiae_Delta_2L:3626021
Madina_gambiae_Delta_X:14215545

Madina_gambiae_Delta_2L_14217696

 

Madina_gambiae_Delta_2L:14217696_overview

 

Madina_gambiae_Delta_2L_14284997

 

Madina_gambiae_Delta_2L:14284997_overview

 

Madina_gambiae_Delta_2L_27986348

 

Madina_gambiae_Delta_2L:27986348_overview

 

Madina_gambiae_Delta_2L_28023911

 

Madina_gambiae_Delta_2L:28023911_overview

 

Madina_gambiae_Delta_2L_28093738

 

Madina_gambiae_Delta_2L:28093738_overview

 

Madina_gambiae_Delta_2L_28110739

 

Madina_gambiae_Delta_2L:28110739_overview

 

Madina_gambiae_Delta_2L_28130562

 

Madina_gambiae_Delta_2L:28130562_overview

 

Madina_gambiae_Delta_2L_28174232

 

Madina_gambiae_Delta_2L:28174232_overview

 

Madina_gambiae_Delta_2L_31419497

 

Madina_gambiae_Delta_2L:31419497_overview

 

Madina_gambiae_Delta_2L_3246748

 

Madina_gambiae_Delta_2L:3246748_overview

 

Madina_gambiae_Delta_2L_3287434

 

Madina_gambiae_Delta_2L:3287434_overview

 

Madina_gambiae_Delta_2L_3626021

 

Madina_gambiae_Delta_2L:3626021_overview

 

Madina_gambiae_Delta_X_14215545

 

Madina_gambiae_Delta_X:14215545_overview

 


Obuasi_gambiae_Delta

Obuasi_gambiae_Delta_peak_filter

 

Obuasi_gambiae_Delta_2L:25666039
Obuasi_gambiae_Delta_2L:47246666
Obuasi_gambiae_Delta_2R:3175305
Obuasi_gambiae_Delta_2R:40905141
Obuasi_gambiae_Delta_3R:10633692
Obuasi_gambiae_Delta_X:15939854

Obuasi_gambiae_Delta_2L_25666039

 

Obuasi_gambiae_Delta_2L:25666039_overview

 

Obuasi_gambiae_Delta_2L_47246666

 

Obuasi_gambiae_Delta_2L:47246666_overview

 

Obuasi_gambiae_Delta_2R_3175305

 

Obuasi_gambiae_Delta_2R:3175305_overview

 

Obuasi_gambiae_Delta_2R_40905141

 

Obuasi_gambiae_Delta_2R:40905141_overview

 

Obuasi_gambiae_Delta_3R_10633692

 

Obuasi_gambiae_Delta_3R:10633692_overview

 

Obuasi_gambiae_Delta_X_15939854

 

Obuasi_gambiae_Delta_X:15939854_overview

 


Baguida_gambiae_PM

Baguida_gambiae_PM_peak_filter

 

Baguida_gambiae_PM_2L:19523767
Baguida_gambiae_PM_2L:3266679
Baguida_gambiae_PM_2L:3471571
Baguida_gambiae_PM_2L:3517468
Baguida_gambiae_PM_2L:3578649
Baguida_gambiae_PM_2R:28578188
Baguida_gambiae_PM_2R:28622655

Baguida_gambiae_PM_2L_19523767

 

Baguida_gambiae_PM_2L:19523767_overview

 

Baguida_gambiae_PM_2L_3266679

 

Baguida_gambiae_PM_2L:3266679_overview

 

Baguida_gambiae_PM_2L_3471571

 

Baguida_gambiae_PM_2L:3471571_overview

 

Baguida_gambiae_PM_2L_3517468

 

Baguida_gambiae_PM_2L:3517468_overview

 

Baguida_gambiae_PM_2L_3578649

 

Baguida_gambiae_PM_2L:3578649_overview

 

Baguida_gambiae_PM_2R_28578188

 

Baguida_gambiae_PM_2R:28578188_overview

 

Baguida_gambiae_PM_2R_28622655

 

Baguida_gambiae_PM_2R:28622655_overview

 


Korle-Bu_coluzzii_PM

Korle-Bu_coluzzii_PM_peak_filter

 

Korle-Bu_coluzzii_PM_2L:22237788
Korle-Bu_coluzzii_PM_2L:23989307
Korle-Bu_coluzzii_PM_2L:28414771
Korle-Bu_coluzzii_PM_2L:28438932
Korle-Bu_coluzzii_PM_2L:28561906
Korle-Bu_coluzzii_PM_2L:28615047
Korle-Bu_coluzzii_PM_2L:28641468
Korle-Bu_coluzzii_PM_2L:28664089
Korle-Bu_coluzzii_PM_2L:28689296
Korle-Bu_coluzzii_PM_2L:36913180
Korle-Bu_coluzzii_PM_2L:36939137
Korle-Bu_coluzzii_PM_2L:36963255
Korle-Bu_coluzzii_PM_2L:37011181
Korle-Bu_coluzzii_PM_2L:37103650
Korle-Bu_coluzzii_PM_2L:37142451
Korle-Bu_coluzzii_PM_2L:37176411
Korle-Bu_coluzzii_PM_2L:37570900
Korle-Bu_coluzzii_PM_2L:3821991
Korle-Bu_coluzzii_PM_3R:4253878
Korle-Bu_coluzzii_PM_X:15614925

Korle-Bu_coluzzii_PM_2L_22237788

 

Korle-Bu_coluzzii_PM_2L:22237788_overview

 

Korle-Bu_coluzzii_PM_2L_23989307

 

Korle-Bu_coluzzii_PM_2L:23989307_overview

 

Korle-Bu_coluzzii_PM_2L_28414771

 

Korle-Bu_coluzzii_PM_2L:28414771_overview

 

Korle-Bu_coluzzii_PM_2L_28438932

 

Korle-Bu_coluzzii_PM_2L:28438932_overview

 

Korle-Bu_coluzzii_PM_2L_28561906

 

Korle-Bu_coluzzii_PM_2L:28561906_overview

 

Korle-Bu_coluzzii_PM_2L_28615047

 

Korle-Bu_coluzzii_PM_2L:28615047_overview

 

Korle-Bu_coluzzii_PM_2L_28641468

 

Korle-Bu_coluzzii_PM_2L:28641468_overview

 

Korle-Bu_coluzzii_PM_2L_28664089

 

Korle-Bu_coluzzii_PM_2L:28664089_overview

 

Korle-Bu_coluzzii_PM_2L_28689296

 

Korle-Bu_coluzzii_PM_2L:28689296_overview

 

Korle-Bu_coluzzii_PM_2L_36913180

 

Korle-Bu_coluzzii_PM_2L:36913180_overview

 

Korle-Bu_coluzzii_PM_2L_36939137

 

Korle-Bu_coluzzii_PM_2L:36939137_overview

 

Korle-Bu_coluzzii_PM_2L_36963255

 

Korle-Bu_coluzzii_PM_2L:36963255_overview

 

Korle-Bu_coluzzii_PM_2L_37011181

 

Korle-Bu_coluzzii_PM_2L:37011181_overview

 

Korle-Bu_coluzzii_PM_2L_37103650

 

Korle-Bu_coluzzii_PM_2L:37103650_overview

 

Korle-Bu_coluzzii_PM_2L_37142451

 

Korle-Bu_coluzzii_PM_2L:37142451_overview

 

Korle-Bu_coluzzii_PM_2L_37176411

 

Korle-Bu_coluzzii_PM_2L:37176411_overview

 

Korle-Bu_coluzzii_PM_2L_37570900

 

Korle-Bu_coluzzii_PM_2L:37570900_overview

 

Korle-Bu_coluzzii_PM_2L_3821991

 

Korle-Bu_coluzzii_PM_2L:3821991_overview

 

Korle-Bu_coluzzii_PM_3R_4253878

 

Korle-Bu_coluzzii_PM_3R:4253878_overview

 

Korle-Bu_coluzzii_PM_X_15614925

 

Korle-Bu_coluzzii_PM_X:15614925_overview

 


Madina_gambiae_PM

Madina_gambiae_PM_peak_filter

 

Madina_gambiae_PM_2L:31835378
Madina_gambiae_PM_2L:32812183
Madina_gambiae_PM_2L:39511138
Madina_gambiae_PM_2L:41724046
Madina_gambiae_PM_2R:3004025
Madina_gambiae_PM_2R:3037081
Madina_gambiae_PM_3R:28433993
Madina_gambiae_PM_3R:28591533

Madina_gambiae_PM_2L_31835378

 

Madina_gambiae_PM_2L:31835378_overview

 

Madina_gambiae_PM_2L_32812183

 

Madina_gambiae_PM_2L:32812183_overview

 

Madina_gambiae_PM_2L_39511138

 

Madina_gambiae_PM_2L:39511138_overview

 

Madina_gambiae_PM_2L_41724046

 

Madina_gambiae_PM_2L:41724046_overview

 

Madina_gambiae_PM_2R_3004025

 

Madina_gambiae_PM_2R:3004025_overview

 

Madina_gambiae_PM_2R_3037081

 

Madina_gambiae_PM_2R:3037081_overview

 

Madina_gambiae_PM_3R_28433993

 

Madina_gambiae_PM_3R:28433993_overview

 

Madina_gambiae_PM_3R_28591533

 

Madina_gambiae_PM_3R:28591533_overview

 


Obuasi_gambiae_PM

Obuasi_gambiae_PM_peak_filter

 

Obuasi_gambiae_PM_2R:3979039
Obuasi_gambiae_PM_3L:11361643
Obuasi_gambiae_PM_3L:11384773
Obuasi_gambiae_PM_X:13850824
Obuasi_gambiae_PM_X:14004692

Obuasi_gambiae_PM_2R_3979039

 

Obuasi_gambiae_PM_2R:3979039_overview

 

Obuasi_gambiae_PM_3L_11361643

 

Obuasi_gambiae_PM_3L:11361643_overview

 

Obuasi_gambiae_PM_3L_11384773

 

Obuasi_gambiae_PM_3L:11384773_overview

 

Obuasi_gambiae_PM_X_13850824

 

Obuasi_gambiae_PM_X:13850824_overview

 

Obuasi_gambiae_PM_X_14004692

 

Obuasi_gambiae_PM_X:14004692_overview